NAME

Bio::MLST::CDC::Convert - Take in a fasta file of emmST sequences and convert it into an MLST format

VERSION

version 2.1.1706216

SYNOPSIS

ake in a fasta file of emmST sequences and convert it into an MLST format, producing an allele file, and a profile.

   use Bio::MLST::CDC::Convert;
   
   my $convert_fasta = Bio::MLST::CDC::Convert->new(
     species        => 'Streptococcus pyogenes emmST',
     input_file     => 't/data/CDC_emmST_partial.tfa',
     gene_name      => 'emmST',
     base_directory => '/path/to/output/dir'
     );
   $convert_fasta->create_mlst_files();

METHODS

create_mlst_files

Create an allele file and a profile, in the MLST directory structure.

AUTHOR

Andrew J. Page <ap13@sanger.ac.uk>

COPYRIGHT AND LICENSE

This software is Copyright (c) 2012 by Wellcome Trust Sanger Institute.

This is free software, licensed under:

  The GNU General Public License, Version 3, June 2007